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ASM1114080v1

Organism name:
Helicobacter pylori (e-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: M-Mx-2005-115
BioSample:
SAMN10881953
BioProject:
PRJNA203445
Submitter:
University of California at Davis
Date:
2020/03/10
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
GenBank assembly accession:
GCA_011140805.1 (latest)
RefSeq assembly accession:
GCF_011140805.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
SGAD01
Assembly method:
ABySS v. Dec-2016
Expected final version:
no
Genome coverage:
39x
Sequencing technology:
Illumina HiSeq

IDs: 6142851 [UID] 17454308 [GenBank] 17619718 [RefSeq]

See Genome Information for Helicobacter pylori

There are 4493 assemblies for this organism

See more

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::02/07/2019 15:23:14
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::4.7
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::1,667
CDSs (total)::1,625
Genes (coding)::1,526
CDSs (with protein)::1,526
Genes (RNA)::42
rRNAs::1, 1, 1 (5S, 16S, 23S)
complete rRNAs::1, 1, 1 (5S, 16S, 23S)
tRNAs::36
ncRNAs::3
Pseudo Genes (total)::99
CDSs (without protein)::99
Pseudo Genes (ambiguous residues)::0 of 99
Pseudo Genes (frameshifted)::71 of 99
Pseudo Genes (incomplete)::10 of 99
Pseudo Genes (internal stop)::27 of 99
Pseudo Genes (multiple problems)::9 of 99
##Genome-Annotation-Data-END##

Global statistics

Total sequence length1,664,338
Total ungapped length1,664,288
Gaps between scaffolds0
Number of scaffolds86
Scaffold N5046,059
Scaffold L5013
Number of contigs87
Contig N5046,059
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)86

Supplemental Content

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced1,664,338861,664,28846,05910

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Helicobacter pyloriHelicobacter pylori

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
GCA_001312765.1Helicobacter pyloritype

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001312765.1Helicobacter pyloritype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared type94.9190.1393.64
Best-match type94.9190.1393.64

ANI result

Taxonomy check statusBest match statusComment
OKspecies-matchna